SMTL ID : 7w3e.1 (1 other biounit)

Bovine cytochrome c oxidese in CN-bound fully reduced state at 50 K

HEA.1: 36 residues within 4Å: Chain A: A.24, G.27, T.31, S.34, I.37, R.38, Y.54, V.58, H.61, A.62, M.65, I.66, M.69, V.70, G.125, W.126, Y.371, V.374, F.377, H.378, L.381, S.382, V.386, I.389, M.390, F.393, M.417, T.424, F.425, Q.428, R.438, R.439, Y.440, V.465, M.468 Ligands: TGL.7 37 PLIP interactions: 37 interactions with chain A, Hydrophobic interactions: A:A.24, A:T.31, A:V.58, A:V.58, A:A.62, A:M.65, A:I.66, A:V.70, A:V.374, A:F.377, A:F.377, A:L.381, A:L.381, A:I.389, A:F.393, A:F.393, A:T.424, A:F.425, A:F.425, A:V.465 Hydrogen bonds: A:R.38, A:Y.54, A:W.126, A:Y.371, A:S.382, A:Q.428, A:R.439, A:Y.440 Water bridges: A:R.438, A:R.438, A:S.461 Salt bridges: A:R.438, A:R.439 pi-Stacking: A:F.377, A:F.425 Metal complexes: A:H.61, A:H.378 HEA.2: 30 residues within 4Å: Chain A: W.126, W.236, V.243, Y.244, I.247, H.290, H.291, T.309, A.313, T.316, G.317, V.320, G.352, G.355, I.356, L.358, A.359, D.364, H.368, V.373, H.376, F.377, V.380, L.381, R.438 Chain B: I.34, P.69, I.72, L.73 Ligands: CYN.6 34 PLIP interactions: 29 interactions with chain A, 5 interactions with chain B, Hydrophobic interactions: A:W.236, A:V.243, A:V.243, A:V.243, A:I.247, A:I.247, A:T.309, A:A.313, A:T.316, A:V.320, A:V.373, A:V.373, A:F.377, A:F.377, A:V.380, A:L.381, A:L.381, B:I.34, B:I.34, B:P.69, B:I.72, B:L.73 Hydrogen bonds: A:W.126 Water bridges: A:Y.244, A:H.291, A:T.316, A:D.369, A:D.369 Salt bridges: A:H.368, A:R.438, A:R.439 pi-Stacking: A:H.290 pi-Cation interactions: A:H.240 Metal complexes: A:H.376 HEA.58: 35 residues within 4Å: Chain N: A.24, G.27, T.31, S.34, I.37, R.38, Y.54, V.58, H.61, A.62, M.65, I.66, M.69, V.70, G.125, W.126, Y.371, V.374, F.377, H.378, L.381, S.382, V.386, I.389, M.390, F.393, M.417, T.424, F.425, Q.428, R.438, R.439, Y.440, V.465, M.468 37 PLIP interactions: 37 interactions with chain N, Hydrophobic interactions: N:A.24, N:T.31, N:V.58, N:V.58, N:A.62, N:M.65, N:I.66, N:V.70, N:V.374, N:F.377, N:F.377, N:L.381, N:L.381, N:I.389, N:F.393, N:F.393, N:T.424, N:F.425, N:F.425, N:V.465 Hydrogen bonds: N:R.38, N:Y.54, N:W.126, N:Y.371, N:S.382, N:Q.428, N:R.439, N:Y.440 Water bridges: N:R.438, N:R.438, N:S.461 Salt bridges: N:R.438, N:R.439 pi-Stacking: N:F.377, N:F.425 Metal complexes: N:H.61, N:H.378 HEA.59: 30 residues within 4Å: Chain N: W.126, W.236, V.243, Y.244, I.247, H.290, H.291, T.309, A.313, T.316, G.317, V.320, G.352, G.355, I.356, L.358, A.359, D.364, H.368, V.373, H.376, F.377, V.380, L.381, R.438 Chain O: I.34, P.69, I.72, L.73 Ligands: CYN.63 34 PLIP interactions: 29 interactions with chain N, 5 interactions with chain O, Hydrophobic interactions: N:W.236, N:V.243, N:V.243, N:V.243, N:I.247, N:I.247, N:T.309, N:A.313, N:T.316, N:V.320, N:I.356, N:V.373, N:V.373, N:F.377, N:F.377, N:V.380, N:L.381, N:L.381, O:I.34, O:I.34, O:P.69, O:I.72, O:L.73 Hydrogen bonds: N:W.126 Water bridges: N:Y.244, N:T.316, N:D.369, N:D.369 Salt bridges: N:H.368, N:R.438, N:R.439 pi-Cation interactions: N:H.240, N:H.240 Metal complexes: N:H.376

CU.3: 4 residues within 4Å: Chain A: H.240, H.290, H.291 Ligands: CYN.6 3 PLIP interactions: 3 interactions with chain A Metal complexes: A:H.240, A:H.290, A:H.291 CU.60: 4 residues within 4Å: Chain N: H.240, H.290, H.291 Ligands: CYN.63 3 PLIP interactions: 3 interactions with chain N Metal complexes: N:H.240, N:H.290, N:H.291

MG.4: 4 residues within 4Å: Chain A: H.368, D.369 Chain B: S.197, E.198 6 PLIP interactions: 2 interactions with chain A, 1 interactions with chain B, 3 Ligand-Water interactions Metal complexes: A:H.368, A:D.369, B:E.198, H2O.14, H2O.14, H2O.16 MG.61: 4 residues within 4Å: Chain N: H.368, D.369 Chain O: S.197, E.198 6 PLIP interactions: 2 interactions with chain N, 1 interactions with chain O, 3 Ligand-Water interactions Metal complexes: N:H.368, N:D.369, O:E.198, H2O.84, H2O.84, H2O.85

NA.5: 5 residues within 4Å: Chain A: E.40, Q.43, G.45, S.441, D.442 2 PLIP interactions: 2 interactions with chain A Hydrogen bonds: A:S.441 Water bridges: A:Q.43 NA.27: 3 residues within 4Å: Chain C: H.146, H.230, E.234 1 PLIP interactions: 1 interactions with chain C Hydrogen bonds: C:H.230 NA.62: 5 residues within 4Å: Chain N: E.40, Q.43, G.45, S.441, D.442 2 PLIP interactions: 2 interactions with chain N Hydrogen bonds: N:Q.43 Water bridges: N:Q.43 NA.82: 3 residues within 4Å: Chain P: H.146, H.230, E.234 1 PLIP interactions: 1 interactions with chain P Hydrogen bonds: P:E.234

CYN.6: 6 residues within 4Å: Chain A: H.240, V.243, H.290, H.291 Ligands: HEA.2, CU.3 No protein-ligand interaction detected (PLIP) CYN.63: 6 residues within 4Å: Chain N: H.240, V.243, H.290, H.291 Ligands: HEA.59, CU.60 No protein-ligand interaction detected (PLIP)

TGL.7: 27 residues within 4Å: Chain A: T.17, L.18, L.20, L.21, F.22, W.25, P.106, F.109, L.110, L.112, L.113, F.393, F.400, S.401, I.472 Chain L: N.9, I.10, P.11, F.12, S.13, R.19, M.23, M.24, F.27, F.28, S.30 Ligands: HEA.1 22 PLIP interactions: 16 interactions with chain A, 6 interactions with chain L Hydrophobic interactions: A:T.17, A:L.18, A:L.20, A:L.21, A:F.22, A:W.25, A:W.25, A:P.106, A:F.109, A:F.109, A:L.112, A:L.113, A:L.113, A:F.393, A:F.393, A:I.472, L:I.10, L:F.12, L:F.27, L:F.27, L:F.28, L:F.28 TGL.18: 17 residues within 4Å: Chain A: F.346, T.354, N.422, F.426, H.429, F.430, L.433 Chain B: L.7, G.8, H.24, L.28, V.31, F.32, S.35, S.36, L.39 Chain I: R.43 18 PLIP interactions: 8 interactions with chain B, 9 interactions with chain A, 1 interactions with chain I Hydrophobic interactions: B:L.28, B:V.31, B:F.32, B:F.32, B:F.32, B:L.39, A:F.346, A:T.354, A:N.422, A:F.426, A:F.426, A:F.426, A:F.426, A:F.430, A:F.430 Water bridges: B:G.8 Salt bridges: B:H.24, I:R.43 TGL.37: 17 residues within 4Å: Chain A: W.334, M.339, L.342, G.343, F.346, F.414, A.415, F.418 Chain B: L.39, I.42, S.43 Chain D: R.70, S.71, T.72, E.74, W.75, I.86 16 PLIP interactions: 8 interactions with chain A, 6 interactions with chain D, 2 interactions with chain B Hydrophobic interactions: A:W.334, A:W.334, A:W.334, A:L.342, A:F.346, A:F.414, A:F.418, D:W.75, D:I.86, B:L.39, B:I.42 Salt bridges: A:K.411 Hydrogen bonds: D:T.72, D:E.74, D:W.75 Water bridges: D:T.72 TGL.73: 15 residues within 4Å: Chain N: T.354, Y.379, N.422, F.426, H.429, F.430, L.433 Chain O: L.7, G.8, H.24, L.28, V.31, F.32, S.35, L.39 13 PLIP interactions: 6 interactions with chain O, 7 interactions with chain N Hydrophobic interactions: O:L.7, O:V.31, O:F.32, O:F.32, N:T.354, N:N.422, N:F.426, N:F.426, N:F.426, N:H.429, N:F.430 Water bridges: O:G.8 Salt bridges: O:H.24 TGL.74: 11 residues within 4Å: Chain N: W.334, L.342, F.346, K.411, F.414, A.415 Chain O: L.39, I.42, S.43, L.46, T.47 12 PLIP interactions: 8 interactions with chain N, 4 interactions with chain O Hydrophobic interactions: N:W.334, N:W.334, N:L.342, N:F.346, N:K.411, N:F.414, N:F.414, O:L.39, O:I.42, O:L.46, O:T.47 Salt bridges: N:K.411

PGV.8: 11 residues within 4Å: Chain A: N.406, T.408, W.409 Chain D: A.81, F.84 Chain K: F.4, H.5 Chain M: P.12, Q.15, A.16, S.20 16 PLIP interactions: 4 interactions with chain K, 5 interactions with chain D, 5 interactions with chain A, 2 interactions with chain M Hydrophobic interactions: K:F.4, K:F.4, D:A.81, D:F.84, D:F.84, D:F.84, D:F.84, A:T.408, A:W.409, A:W.409, M:P.12, M:Q.15 Water bridges: K:F.4, A:R.480 Salt bridges: K:H.5 Hydrogen bonds: A:T.408 PGV.30: 29 residues within 4Å: Chain A: F.94, P.95, R.96, M.97, M.100, F.148, H.151, L.152, I.158, P.200 Chain C: H.7, V.9, G.18, A.22, M.25, T.26, N.48, T.51, M.52, W.55, W.56, V.59, E.62, H.69, L.77, G.80, F.84 Ligands: PEK.28, PGV.31 15 PLIP interactions: 8 interactions with chain C, 7 interactions with chain A Hydrophobic interactions: C:A.22, C:T.26, C:T.51, C:W.55, C:W.55, C:W.55, C:W.56, A:F.148, A:L.152, A:I.158, A:P.200 Hydrogen bonds: C:W.55, A:R.96, A:M.97 Salt bridges: A:R.96 PGV.31: 28 residues within 4Å: Chain C: L.45, N.48, M.49, M.52, W.56, V.59, I.60, S.63, T.64, H.69, L.77, M.81, F.84, L.204, H.205, I.208, T.211, F.212, R.219, H.224, F.225, T.226, H.229, H.230, F.231, G.232 Ligands: PGV.30, CDL.33 29 PLIP interactions: 27 interactions with chain C, 2 interactions with chain F Hydrophobic interactions: C:L.45, C:W.56, C:W.56, C:W.56, C:W.56, C:W.56, C:W.56, C:I.60, C:F.84, C:F.84, C:L.204, C:I.208, C:T.211, C:F.212, C:F.212, C:F.212 Hydrogen bonds: C:S.63, C:R.219, C:F.231, C:G.232 Water bridges: C:S.63, C:R.219, C:H.229, C:H.229, F:Q.11, F:E.16 Salt bridges: C:R.219, C:R.219, C:H.229 PGV.32: 12 residues within 4Å: Chain A: F.237 Chain C: T.93, W.97, Y.100, H.101, L.104, A.105 Chain H: N.18 Chain P: W.256 Chain R: S.2 Ligands: CHD.26, DMU.95 10 PLIP interactions: 4 interactions with chain C, 4 interactions with chain H, 1 interactions with chain A, 1 interactions with chain P Hydrophobic interactions: C:T.93, C:W.97, C:W.97, C:W.97, A:F.237, P:W.256 Water bridges: H:N.16, H:N.18, H:N.18, H:R.21 PGV.64: 32 residues within 4Å: Chain N: F.94, P.95, R.96, M.97, M.100, F.148, H.151, L.152, V.155, P.200 Chain P: H.7, V.9, G.18, S.21, A.22, M.25, T.26, N.48, T.51, M.52, W.55, W.56, V.59, E.62, H.69, L.77, G.80, F.84, S.87, E.88, F.91 Ligands: PEK.84 19 PLIP interactions: 10 interactions with chain P, 9 interactions with chain N Hydrophobic interactions: P:A.22, P:T.26, P:T.51, P:W.55, P:W.55, P:W.55, P:W.56, P:F.91, N:F.148, N:L.152, N:V.155, N:P.200 Hydrogen bonds: P:W.55, N:R.96, N:R.96, N:M.97 Water bridges: P:M.81, N:A.93 Salt bridges: N:R.96 PGV.86: 24 residues within 4Å: Chain P: M.52, W.56, V.59, I.60, S.63, T.64, H.69, L.77, M.81, F.84, E.88, L.204, H.205, I.208, T.211, F.212, R.219, H.224, F.225, T.226, H.229, H.230, F.231, G.232